HEADER SUGAR BINDING PROTEIN 12-NOV-15 5EQ3 TITLE CRYSTAL STRUCTURE OF THE SRPA ADHESIN FROM STREPTOCOCCUS SANGUINIS TITLE 2 WITH A SIALYL GALACTOSE DISACCHARIDE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLATELET-BINDING GLYCOPROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS SANGUINIS; SOURCE 3 ORGANISM_TAXID: 388919; SOURCE 4 STRAIN: SK36; SOURCE 5 GENE: SRPA, SSA_0829; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 GOLD (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX3X KEYWDS BACTERIAL ADHESIN, LECTIN, IMMUNOGLOBULIN FOLD, SERINE-RICH REPEAT, KEYWDS 2 SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.V.LOUKACHEVITCH,K.M.MCCULLOCH,K.R.VANN,Z.WAWRZAK,S.ANDERSON, AUTHOR 2 T.M.IVERSON REVDAT 7 06-MAR-24 5EQ3 1 HETSYN LINK REVDAT 6 29-JUL-20 5EQ3 1 COMPND REMARK HETNAM LINK REVDAT 6 2 1 SITE ATOM REVDAT 5 04-DEC-19 5EQ3 1 REMARK REVDAT 4 20-SEP-17 5EQ3 1 REMARK REVDAT 3 13-APR-16 5EQ3 1 JRNL REVDAT 2 17-FEB-16 5EQ3 1 JRNL REVDAT 1 27-JAN-16 5EQ3 0 JRNL AUTH B.A.BENSING,L.V.LOUKACHEVITCH,K.M.MCCULLOCH,H.YU,K.R.VANN, JRNL AUTH 2 Z.WAWRZAK,S.ANDERSON,X.CHEN,P.M.SULLAM,T.M.IVERSON JRNL TITL STRUCTURAL BASIS FOR SIALOGLYCAN BINDING BY THE JRNL TITL 2 STREPTOCOCCUS SANGUINIS SRPA ADHESIN. JRNL REF J.BIOL.CHEM. V. 291 7230 2016 JRNL REFN ESSN 1083-351X JRNL PMID 26833566 JRNL DOI 10.1074/JBC.M115.701425 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.23 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 32864 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1643 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 28.2321 - 4.5667 0.99 2820 155 0.1563 0.1944 REMARK 3 2 4.5667 - 3.6272 1.00 2772 144 0.1613 0.1834 REMARK 3 3 3.6272 - 3.1694 1.00 2770 150 0.1924 0.2498 REMARK 3 4 3.1694 - 2.8799 1.00 2782 136 0.2149 0.2561 REMARK 3 5 2.8799 - 2.6736 1.00 2716 156 0.2252 0.2649 REMARK 3 6 2.6736 - 2.5161 1.00 2757 157 0.2321 0.2924 REMARK 3 7 2.5161 - 2.3902 1.00 2731 137 0.2248 0.2827 REMARK 3 8 2.3902 - 2.2862 0.99 2697 149 0.2320 0.2792 REMARK 3 9 2.2862 - 2.1982 0.92 2518 123 0.2351 0.3336 REMARK 3 10 2.1982 - 2.1224 0.86 2345 109 0.2368 0.2760 REMARK 3 11 2.1224 - 2.0560 0.82 2237 118 0.2469 0.2822 REMARK 3 12 2.0560 - 1.9973 0.76 2076 109 0.2663 0.3396 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.026 3270 REMARK 3 ANGLE : 0.979 4427 REMARK 3 CHIRALITY : 0.042 526 REMARK 3 PLANARITY : 0.005 586 REMARK 3 DIHEDRAL : 11.864 1205 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5EQ3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215312. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32930 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.13100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.50000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM NA CACODYLATE, 0.2 M REMARK 280 CA(CH3CO2)2, 18% PEG 8000. SRPA PROTEIN WAS CONCENTRATED TO 16 REMARK 280 MG/ML IN 20 MM TRIS PH 7.2, 10 MM DISACCHARIDE, PH 6.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 87.31000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.50250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 87.31000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.50250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -104.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 161.14434 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 62.59181 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 710 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 728 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ARG A 249 REMARK 465 ARG A 250 REMARK 465 ALA A 251 REMARK 465 ARG B 249 REMARK 465 ARG B 250 REMARK 465 ALA B 251 REMARK 465 ALA B 446 REMARK 465 SER B 447 REMARK 465 SER B 448 REMARK 465 ARG B 449 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 766 O HOH B 769 2.11 REMARK 500 O HOH B 712 O HOH B 744 2.13 REMARK 500 O HOH B 663 O HOH B 726 2.14 REMARK 500 OG1 THR A 433 O HOH A 601 2.15 REMARK 500 O HOH A 728 O HOH A 745 2.18 REMARK 500 OE1 GLU A 278 O HOH A 602 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 617 O HOH A 617 2555 2.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 THR A 293 77.08 -105.72 REMARK 500 ALA A 316 53.07 -150.72 REMARK 500 SER A 390 81.19 -158.80 REMARK 500 ASN A 439 0.97 -66.47 REMARK 500 ASP B 282 -66.55 -28.61 REMARK 500 SER B 390 86.87 -157.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 779 DISTANCE = 6.35 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 504 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 253 OD1 REMARK 620 2 ASP A 253 OD2 54.7 REMARK 620 3 THR A 255 O 79.6 133.5 REMARK 620 4 ASP A 281 OD1 162.9 140.2 86.2 REMARK 620 5 ASP A 281 OD2 137.5 86.4 139.7 54.1 REMARK 620 6 ASP A 282 OD1 86.1 90.9 94.2 85.5 77.2 REMARK 620 7 ASP A 353 OD2 95.6 90.9 85.2 92.6 102.0 178.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 505 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 372 O REMARK 620 2 THR A 372 OG1 72.1 REMARK 620 3 TYR A 375 O 75.7 126.0 REMARK 620 4 ASP A 434 OD1 134.7 62.7 134.7 REMARK 620 5 ASP A 434 OD2 119.0 76.9 82.6 54.4 REMARK 620 6 HOH A 625 O 97.6 71.0 156.2 65.7 119.8 REMARK 620 7 HOH A 695 O 86.9 140.7 77.2 126.8 141.8 79.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 503 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 400 OE1 REMARK 620 2 GLU A 400 OE2 54.7 REMARK 620 3 HOH A 621 O 113.5 62.3 REMARK 620 4 HOH A 677 O 77.3 77.2 108.4 REMARK 620 5 GLU B 400 OE1 159.7 128.3 79.5 83.9 REMARK 620 6 GLU B 400 OE2 137.6 142.3 85.1 134.7 55.5 REMARK 620 7 HOH B 649 O 77.6 85.1 78.4 154.5 121.5 69.2 REMARK 620 8 HOH B 679 O 88.2 140.6 157.1 82.4 81.8 73.4 100.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 503 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 714 O REMARK 620 2 HOH A 751 O 71.9 REMARK 620 3 HOH B 772 O 170.1 115.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 501 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 253 OD1 REMARK 620 2 ASP B 253 OD2 54.1 REMARK 620 3 THR B 255 O 80.3 133.8 REMARK 620 4 ASP B 281 OD1 164.0 141.9 83.8 REMARK 620 5 ASP B 281 OD2 140.1 88.5 137.5 55.0 REMARK 620 6 ASP B 282 OD1 118.8 108.2 99.1 62.1 55.1 REMARK 620 7 ASP B 282 OD2 63.5 77.5 89.2 114.8 98.4 55.3 REMARK 620 8 ASP B 353 OD2 88.0 83.4 88.9 93.4 102.3 152.9 151.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 502 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 372 O REMARK 620 2 THR B 372 OG1 71.5 REMARK 620 3 TYR B 375 O 81.0 125.6 REMARK 620 4 ASP B 434 OD1 142.4 70.9 124.2 REMARK 620 5 ASP B 434 OD2 120.3 80.3 74.5 54.8 REMARK 620 6 HOH B 609 O 80.8 133.8 83.7 125.3 145.7 REMARK 620 7 HOH B 672 O 137.0 148.9 78.8 79.3 89.9 59.7 REMARK 620 8 HOH B 692 O 94.3 80.1 149.3 76.9 131.5 65.6 84.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 504 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 373 O REMARK 620 2 HOH B 624 O 108.0 REMARK 620 3 HOH B 732 O 89.0 154.8 REMARK 620 4 HOH B 757 O 142.4 109.1 58.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 505 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 631 O REMARK 620 2 HOH B 654 O 85.4 REMARK 620 3 HOH B 723 O 84.9 78.2 REMARK 620 4 HOH B 734 O 146.1 61.6 80.9 REMARK 620 5 HOH B 735 O 99.7 91.2 168.2 89.4 REMARK 620 6 HOH B 750 O 96.0 177.9 103.4 117.2 87.1 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5EQ2 RELATED DB: PDB REMARK 900 RELATED ID: 5EQ3 RELATED DB: PDB DBREF 5EQ3 A 249 449 UNP A3CM52 A3CM52_STRSV 249 449 DBREF 5EQ3 B 249 449 UNP A3CM52 A3CM52_STRSV 249 449 SEQRES 1 A 201 ARG ARG ALA THR ASP THR THR PRO PRO THR ILE THR VAL SEQRES 2 A 201 PRO SER ASP ILE ILE ALA TYR ARG GLY GLU GLU PHE GLU SEQRES 3 A 201 PHE TYR PHE GLU ILE THR ASP ASP SER GLY GLN VAL LYS SEQRES 4 A 201 ASN ILE GLU LEU SER THR PHE GLY LYS PRO LEU GLY LEU SEQRES 5 A 201 ASN TRP LEU GLU TYR SER GLU ASP ASN PHE ASN VAL PRO SEQRES 6 A 201 GLY ASN ALA THR SER ASP ASN PRO LEU ARG VAL ARG VAL SEQRES 7 A 201 HIS GLY THR VAL PRO LEU ASN GLU PRO ILE PRO ALA ASP SEQRES 8 A 201 LYS ASN ARG ALA GLN PHE THR ARG THR ILE ARG ALA TRP SEQRES 9 A 201 ASP ALA ALA GLY ASN VAL SER SER ASN ILE THR PHE VAL SEQRES 10 A 201 ILE LYS TYR ARG ALA GLN THR ASP LYS TYR ASN PRO ALA SEQRES 11 A 201 ASP PRO THR ILE THR TYR VAL ASP ARG LEU SER SER LEU SEQRES 12 A 201 SER PRO SER GLU LYS ASN ALA VAL GLU ALA ALA VAL ARG SEQRES 13 A 201 ALA ALA ASN PRO GLN ILE PRO ALA ALA ALA ARG ILE THR SEQRES 14 A 201 VAL SER ALA ASN GLY THR VAL THR ILE THR TYR PRO ASP SEQRES 15 A 201 SER SER THR ASP THR ILE THR ALA ASN ARG VAL VAL LYS SEQRES 16 A 201 ASP LEU ALA SER SER ARG SEQRES 1 B 201 ARG ARG ALA THR ASP THR THR PRO PRO THR ILE THR VAL SEQRES 2 B 201 PRO SER ASP ILE ILE ALA TYR ARG GLY GLU GLU PHE GLU SEQRES 3 B 201 PHE TYR PHE GLU ILE THR ASP ASP SER GLY GLN VAL LYS SEQRES 4 B 201 ASN ILE GLU LEU SER THR PHE GLY LYS PRO LEU GLY LEU SEQRES 5 B 201 ASN TRP LEU GLU TYR SER GLU ASP ASN PHE ASN VAL PRO SEQRES 6 B 201 GLY ASN ALA THR SER ASP ASN PRO LEU ARG VAL ARG VAL SEQRES 7 B 201 HIS GLY THR VAL PRO LEU ASN GLU PRO ILE PRO ALA ASP SEQRES 8 B 201 LYS ASN ARG ALA GLN PHE THR ARG THR ILE ARG ALA TRP SEQRES 9 B 201 ASP ALA ALA GLY ASN VAL SER SER ASN ILE THR PHE VAL SEQRES 10 B 201 ILE LYS TYR ARG ALA GLN THR ASP LYS TYR ASN PRO ALA SEQRES 11 B 201 ASP PRO THR ILE THR TYR VAL ASP ARG LEU SER SER LEU SEQRES 12 B 201 SER PRO SER GLU LYS ASN ALA VAL GLU ALA ALA VAL ARG SEQRES 13 B 201 ALA ALA ASN PRO GLN ILE PRO ALA ALA ALA ARG ILE THR SEQRES 14 B 201 VAL SER ALA ASN GLY THR VAL THR ILE THR TYR PRO ASP SEQRES 15 B 201 SER SER THR ASP THR ILE THR ALA ASN ARG VAL VAL LYS SEQRES 16 B 201 ASP LEU ALA SER SER ARG HET MBG C 1 13 HET NGC C 2 21 HET CA A 503 1 HET CA A 504 1 HET CA A 505 1 HET ACT A 506 4 HET ACT A 507 4 HET CA B 501 1 HET CA B 502 1 HET CA B 503 1 HET CA B 504 1 HET NA B 505 1 HET ACT B 506 4 HETNAM MBG METHYL BETA-D-GALACTOPYRANOSIDE HETNAM NGC N-GLYCOLYL-ALPHA-NEURAMINIC ACID HETNAM CA CALCIUM ION HETNAM ACT ACETATE ION HETNAM NA SODIUM ION HETSYN MBG METHYL-BETA-GALACTOSE; METHYL BETA-D-GALACTOSIDE; HETSYN 2 MBG METHYL D-GALACTOSIDE; METHYL GALACTOSIDE HETSYN NGC N-GLYCOLYLNEURAMINIC ACID; SIALIC ACID; 3,5-DIDEOXY-5- HETSYN 2 NGC [(HYDROXYACETYL)AMINO]-D-GLYCERO-ALPHA-D-GALACTO-NON- HETSYN 3 NGC 2-ULOPYRANOSONIC ACID FORMUL 3 MBG C7 H14 O6 FORMUL 3 NGC C11 H19 N O10 FORMUL 4 CA 7(CA 2+) FORMUL 7 ACT 3(C2 H3 O2 1-) FORMUL 13 NA NA 1+ FORMUL 15 HOH *346(H2 O) HELIX 1 AA1 ASP A 339 ARG A 342 5 4 HELIX 2 AA2 ALA A 370 TYR A 375 1 6 HELIX 3 AA3 SER A 392 ASN A 407 1 16 HELIX 4 AA4 THR A 437 ARG A 440 5 4 HELIX 5 AA5 ASP B 339 ARG B 342 5 4 HELIX 6 AA6 ALA B 370 TYR B 375 1 6 HELIX 7 AA7 SER B 392 ALA B 406 1 15 HELIX 8 AA8 THR B 437 ARG B 440 5 4 SHEET 1 AA1 4 THR A 258 THR A 260 0 SHEET 2 AA1 4 PHE A 273 THR A 280 -1 O GLU A 278 N THR A 260 SHEET 3 AA1 4 LEU A 322 GLY A 328 -1 O VAL A 326 N PHE A 275 SHEET 4 AA1 4 LEU A 303 TYR A 305 -1 N GLU A 304 O HIS A 327 SHEET 1 AA2 4 ILE A 265 TYR A 268 0 SHEET 2 AA2 4 ILE A 362 ARG A 369 1 O LYS A 367 N ALA A 267 SHEET 3 AA2 4 GLN A 344 ASP A 353 -1 N PHE A 345 O ILE A 366 SHEET 4 AA2 4 VAL A 286 SER A 292 -1 N SER A 292 O THR A 348 SHEET 1 AA3 2 THR A 383 VAL A 385 0 SHEET 2 AA3 2 VAL A 442 ASP A 444 1 O LYS A 443 N VAL A 385 SHEET 1 AA4 3 ARG A 415 VAL A 418 0 SHEET 2 AA4 3 VAL A 424 THR A 427 -1 O THR A 427 N ARG A 415 SHEET 3 AA4 3 THR A 433 ILE A 436 -1 O ASP A 434 N ILE A 426 SHEET 1 AA5 4 THR B 258 THR B 260 0 SHEET 2 AA5 4 PHE B 273 THR B 280 -1 O THR B 280 N THR B 258 SHEET 3 AA5 4 LEU B 322 GLY B 328 -1 O VAL B 326 N PHE B 275 SHEET 4 AA5 4 LEU B 303 TYR B 305 -1 N GLU B 304 O HIS B 327 SHEET 1 AA6 4 ILE B 265 TYR B 268 0 SHEET 2 AA6 4 ILE B 362 ARG B 369 1 O LYS B 367 N ALA B 267 SHEET 3 AA6 4 GLN B 344 TRP B 352 -1 N ILE B 349 O ILE B 362 SHEET 4 AA6 4 ASN B 288 SER B 292 -1 N SER B 292 O THR B 348 SHEET 1 AA7 2 THR B 383 VAL B 385 0 SHEET 2 AA7 2 VAL B 442 ASP B 444 1 O LYS B 443 N VAL B 385 SHEET 1 AA8 3 ARG B 415 VAL B 418 0 SHEET 2 AA8 3 VAL B 424 THR B 427 -1 O THR B 425 N THR B 417 SHEET 3 AA8 3 THR B 433 ILE B 436 -1 O ASP B 434 N ILE B 426 LINK O3 MBG C 1 C2 NGC C 2 1555 1555 1.39 LINK OD1 ASP A 253 CA CA A 504 1555 1555 2.39 LINK OD2 ASP A 253 CA CA A 504 1555 1555 2.37 LINK O THR A 255 CA CA A 504 1555 1555 2.34 LINK OD1 ASP A 281 CA CA A 504 1555 1555 2.39 LINK OD2 ASP A 281 CA CA A 504 1555 1555 2.38 LINK OD1 ASP A 282 CA CA A 504 1555 1555 2.36 LINK OD2 ASP A 353 CA CA A 504 1555 1555 2.36 LINK O THR A 372 CA CA A 505 1555 1555 2.37 LINK OG1 THR A 372 CA CA A 505 1555 1555 2.38 LINK O TYR A 375 CA CA A 505 1555 1555 2.27 LINK OE1 GLU A 400 CA CA A 503 1555 1555 2.37 LINK OE2 GLU A 400 CA CA A 503 1555 1555 2.37 LINK OD1 ASP A 434 CA CA A 505 1555 1555 2.38 LINK OD2 ASP A 434 CA CA A 505 1555 1555 2.36 LINK CA CA A 503 O HOH A 621 1555 1555 2.55 LINK CA CA A 503 O HOH A 677 1555 1555 2.39 LINK CA CA A 503 OE1 GLU B 400 1555 1555 2.36 LINK CA CA A 503 OE2 GLU B 400 1555 1555 2.38 LINK CA CA A 503 O HOH B 649 1555 1555 2.40 LINK CA CA A 503 O HOH B 679 1555 1555 2.41 LINK CA CA A 505 O HOH A 625 1555 1555 2.38 LINK CA CA A 505 O HOH A 695 1555 1555 2.39 LINK O HOH A 714 CA CA B 503 3546 1555 2.40 LINK O HOH A 751 CA CA B 503 3546 1555 2.88 LINK OD1 ASP B 253 CA CA B 501 1555 1555 2.36 LINK OD2 ASP B 253 CA CA B 501 1555 1555 2.38 LINK O THR B 255 CA CA B 501 1555 1555 2.36 LINK OD1 ASP B 281 CA CA B 501 1555 1555 2.37 LINK OD2 ASP B 281 CA CA B 501 1555 1555 2.35 LINK OD1 ASP B 282 CA CA B 501 1555 1555 2.37 LINK OD2 ASP B 282 CA CA B 501 1555 1555 2.35 LINK OD2 ASP B 353 CA CA B 501 1555 1555 2.37 LINK O THR B 372 CA CA B 502 1555 1555 2.38 LINK OG1 THR B 372 CA CA B 502 1555 1555 2.39 LINK O ASP B 373 CA CA B 504 1555 1555 2.35 LINK O TYR B 375 CA CA B 502 1555 1555 2.28 LINK OD1 ASP B 434 CA CA B 502 1555 1555 2.37 LINK OD2 ASP B 434 CA CA B 502 1555 1555 2.37 LINK CA CA B 502 O HOH B 609 1555 1555 2.39 LINK CA CA B 502 O HOH B 672 1555 1555 2.39 LINK CA CA B 502 O HOH B 692 1555 1555 2.39 LINK CA CA B 503 O HOH B 772 1555 1555 2.16 LINK CA CA B 504 O HOH B 624 1555 2656 2.98 LINK CA CA B 504 O HOH B 732 1555 1555 2.39 LINK CA CA B 504 O HOH B 757 1555 2656 2.38 LINK NA NA B 505 O HOH B 631 1555 1555 2.39 LINK NA NA B 505 O HOH B 654 1555 1555 2.89 LINK NA NA B 505 O HOH B 723 1555 1555 2.93 LINK NA NA B 505 O HOH B 734 1555 1555 2.39 LINK NA NA B 505 O HOH B 735 1555 1555 3.09 LINK NA NA B 505 O HOH B 750 1555 1555 2.40 CRYST1 174.620 47.005 64.026 90.00 102.15 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.005727 0.000000 0.001233 0.00000 SCALE2 0.000000 0.021274 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015977 0.00000